Manganese in PDB 1f5a: Crystal Structure of Mammalian Poly(A) Polymerase

All present enzymatic activity of Crystal Structure of Mammalian Poly(A) Polymerase:
2.7.7.19;

The structure of Crystal Structure of Mammalian Poly(A) Polymerase, PDB code: 1f5a was solved by G.Martin, W.Keller, S.Doublie, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.50
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	57.550, 62.720, 179.690, 90.00, 90.00, 90.00
R / Rfree (%)	21.9 / 26.1

The binding sites of Manganese atom in the Crystal Structure of Mammalian Poly(A) Polymerase (pdb code 1f5a). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 3 binding sites of Manganese where determined in the Crystal Structure of Mammalian Poly(A) Polymerase, PDB code: 1f5a:
Jump to Manganese binding site number: 1; 2; 3;

Manganese binding site 1 out of 3 in the Crystal Structure of Mammalian Poly(A) Polymerase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Mammalian Poly(A) Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn1001 b:45.4 occ:1.00 O5' A:3PO4000 2.1 56.9 1.0 OD1 A:ASP115 2.3 27.6 1.0 N7 A:3AT1000 2.4 39.3 1.0 OD2 A:ASP167 2.4 30.9 1.0 OD2 A:ASP113 2.7 35.6 1.0 O A:HOH2155 2.7 40.4 1.0 CG A:ASP167 2.9 28.1 1.0 C8 A:3AT1000 3.2 39.3 1.0 CG A:ASP115 3.4 24.6 1.0 CB A:ASP167 3.4 24.4 1.0 CG A:ASP113 3.4 36.5 1.0 C5 A:3AT1000 3.5 38.9 1.0 PA A:3PO4000 3.5 54.7 1.0 OD1 A:ASP113 3.6 36.0 1.0 OD1 A:ASP167 3.6 32.6 1.0 MN A:MN1002 3.7 36.2 1.0 N6 A:3AT1000 3.7 36.8 1.0 O3A A:3PO4000 3.8 55.8 1.0 OD2 A:ASP115 3.8 26.6 1.0 C6 A:3AT1000 4.1 38.4 1.0 O2A A:3PO4000 4.2 55.6 1.0 O1A A:3PO4000 4.5 57.1 1.0 N9 A:3AT1000 4.5 39.3 1.0 CB A:ASP115 4.6 25.4 1.0 C4 A:3AT1000 4.6 39.8 1.0 NZ A:LYS158 4.7 33.3 1.0 CB A:ASP113 4.8 36.8 1.0 CA A:ASP167 4.9 22.2 1.0

Manganese binding site 2 out of 3 in the Crystal Structure of Mammalian Poly(A) Polymerase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of Mammalian Poly(A) Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn1002 b:36.2 occ:1.00 OD1 A:ASP113 2.2 36.0 1.0 O2A A:3AT1000 2.3 42.2 1.0 O A:HOH2104 2.5 22.6 1.0 OD2 A:ASP115 2.5 26.6 1.0 O3A A:3PO4000 2.8 55.8 1.0 O2B A:3PO4000 3.0 56.6 1.0 O2A A:3PO4000 3.1 55.6 1.0 CG A:ASP115 3.1 24.6 1.0 OD1 A:ASP115 3.2 27.6 1.0 CG A:ASP113 3.2 36.5 1.0 PA A:3PO4000 3.3 54.7 1.0 PB A:3PO4000 3.4 54.2 1.0 O5' A:3PO4000 3.5 56.9 1.0 MN A:MN1003 3.6 36.2 1.0 OD2 A:ASP113 3.6 35.6 1.0 PA A:3AT1000 3.7 42.6 1.0 MN A:MN1001 3.7 45.4 1.0 O A:ASP113 4.0 36.0 1.0 O1B A:3PO4000 4.2 56.0 1.0 O5' A:3AT1000 4.2 41.0 1.0 O A:HOH2127 4.3 39.8 1.0 C A:ASP113 4.4 37.0 1.0 O1A A:3AT1000 4.4 41.5 1.0 C8 A:3AT1000 4.4 39.3 1.0 CB A:ASP115 4.5 25.4 1.0 N A:ASP113 4.5 40.8 1.0 CB A:ASP113 4.5 36.8 1.0 O A:HOH2021 4.6 17.8 1.0 O1G A:3AT1000 4.6 38.2 1.0 N7 A:3AT1000 4.7 39.3 1.0 N A:ASP115 4.7 26.7 1.0 CA A:ASP113 4.7 38.4 1.0 O1A A:3PO4000 4.8 57.1 1.0 O3B A:3PO4000 4.8 58.1 1.0 O3A A:3AT1000 4.9 44.2 1.0 CB A:ALA112 5.0 43.8 1.0 N A:ILE114 5.0 34.8 1.0

Manganese binding site 3 out of 3 in the Crystal Structure of Mammalian Poly(A) Polymerase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Crystal Structure of Mammalian Poly(A) Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn1003 b:36.2 occ:1.00 O2A A:3PO4000 2.5 55.6 1.0 O1G A:3AT1000 2.5 38.2 1.0 O1B A:3AT1000 2.6 45.5 1.0 O2A A:3AT1000 2.6 42.2 1.0 O2B A:3PO4000 2.7 56.6 1.0 O1G A:3PO4000 2.8 60.3 1.0 O3B A:3AT1000 3.0 41.1 1.0 PG A:3AT1000 3.1 38.3 1.0 O3A A:3AT1000 3.3 44.2 1.0 PB A:3AT1000 3.3 44.6 1.0 O2G A:3AT1000 3.4 38.5 1.0 PB A:3PO4000 3.4 54.2 1.0 PA A:3PO4000 3.4 54.7 1.0 PA A:3AT1000 3.5 42.6 1.0 O3A A:3PO4000 3.5 55.8 1.0 O3B A:3PO4000 3.5 58.1 1.0 MN A:MN1002 3.6 36.2 1.0 PG A:3PO4000 3.7 60.9 1.0 O A:HOH2010 4.1 14.3 1.0 O1A A:3PO4000 4.1 57.1 1.0 O2G A:3PO4000 4.2 60.5 1.0 O A:HOH2127 4.4 39.8 1.0 O1A A:3AT1000 4.5 41.5 1.0 O3G A:3AT1000 4.6 40.6 1.0 O5' A:3AT1000 4.6 41.0 1.0 O A:HOH2104 4.7 22.6 1.0 O5' A:3PO4000 4.7 56.9 1.0 O2B A:3AT1000 4.7 43.9 1.0 O1B A:3PO4000 4.8 56.0 1.0

G.Martin, W.Keller, S.Doublie. Crystal Structure of Mammalian Poly(A) Polymerase in Complex with An Analog of Atp. Embo J. V. 19 4193 2000.
ISSN: ISSN 0261-4189
PubMed: 10944102
DOI: 10.1093/EMBOJ/19.16.4193